Multiple sequence alignment - TraesCS4D01G101700

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Download Multiple Sequence Alignment: (Fasta) (Clustal)


BLAST Results


Shown here are the results of a BLAST search against the genome using the input sequence. The pipeline uses this to extract flanking regions for cloning. If the result of the multiple sequence alignment is not as expected, these results could be used for further investigation.

qseqid sseqid percentage.identical alignment.length no.mismatch no.gap.openings qstart qend sstart send evalue bitscore
0 TraesCS4D01G101700 chr4D 100.000 9302 0 0 1 9302 79699920 79709221 0.000000e+00 17178.0
1 TraesCS4D01G101700 chr4D 82.934 2297 281 65 813 3091 79212931 79215134 0.000000e+00 1967.0
2 TraesCS4D01G101700 chr4D 83.481 1580 185 42 7257 8814 79221162 79222687 0.000000e+00 1402.0
3 TraesCS4D01G101700 chr4D 85.167 209 25 5 3176 3380 79215386 79215592 9.470000e-50 209.0
4 TraesCS4D01G101700 chr4D 82.759 232 26 12 5461 5682 79220492 79220719 2.650000e-45 195.0
5 TraesCS4D01G101700 chr4D 80.870 230 33 9 21 245 79211739 79211962 4.470000e-38 171.0
6 TraesCS4D01G101700 chr4D 96.040 101 3 1 5456 5555 79705268 79705368 7.470000e-36 163.0
7 TraesCS4D01G101700 chr4D 96.040 101 3 1 5350 5449 79705374 79705474 7.470000e-36 163.0
8 TraesCS4D01G101700 chr4D 100.000 28 0 0 3718 3745 79703558 79703585 1.700000e-02 52.8
9 TraesCS4D01G101700 chr4D 100.000 28 0 0 3639 3666 79703637 79703664 1.700000e-02 52.8
10 TraesCS4D01G101700 chr4B 97.111 3634 70 20 1 3617 111036179 111039794 0.000000e+00 6096.0
11 TraesCS4D01G101700 chr4B 95.643 2915 66 22 6377 9272 111043051 111045923 0.000000e+00 4623.0
12 TraesCS4D01G101700 chr4B 96.708 1519 41 4 3653 5167 111040023 111041536 0.000000e+00 2519.0
13 TraesCS4D01G101700 chr4B 82.963 2295 284 63 813 3091 110704161 110706364 0.000000e+00 1973.0
14 TraesCS4D01G101700 chr4B 95.743 1198 40 9 5163 6355 111041568 111042759 0.000000e+00 1919.0
15 TraesCS4D01G101700 chr4B 84.258 1550 181 34 7257 8785 110712349 110713856 0.000000e+00 1452.0
16 TraesCS4D01G101700 chr4B 84.689 209 26 5 3176 3380 110706614 110706820 4.400000e-48 204.0
17 TraesCS4D01G101700 chr4B 81.498 227 33 7 21 245 110702974 110703193 2.670000e-40 178.0
18 TraesCS4D01G101700 chr4B 97.030 101 2 1 5350 5449 111041861 111041961 1.610000e-37 169.0
19 TraesCS4D01G101700 chr4B 93.396 106 7 0 5577 5682 110711801 110711906 3.480000e-34 158.0
20 TraesCS4D01G101700 chr4B 100.000 30 0 0 3639 3668 111040092 111040121 1.000000e-03 56.5
21 TraesCS4D01G101700 chr4A 97.185 2948 63 11 678 3620 506171659 506168727 0.000000e+00 4966.0
22 TraesCS4D01G101700 chr4A 97.136 2654 47 10 6377 9014 506166564 506163924 0.000000e+00 4453.0
23 TraesCS4D01G101700 chr4A 82.835 2307 283 66 813 3091 506719628 506717407 0.000000e+00 1962.0
24 TraesCS4D01G101700 chr4A 94.732 987 26 11 5392 6355 506167840 506166857 0.000000e+00 1511.0
25 TraesCS4D01G101700 chr4A 83.196 1583 182 45 7257 8814 506710786 506709263 0.000000e+00 1373.0
26 TraesCS4D01G101700 chr4A 96.712 730 22 2 3669 4397 506168567 506167839 0.000000e+00 1214.0
27 TraesCS4D01G101700 chr4A 96.726 672 14 4 1 665 506172633 506171963 0.000000e+00 1112.0
28 TraesCS4D01G101700 chr4A 82.278 237 32 8 21 255 506720825 506720597 7.370000e-46 196.0
29 TraesCS4D01G101700 chr4A 80.292 274 41 8 5461 5723 506711347 506711076 2.650000e-45 195.0
30 TraesCS4D01G101700 chr4A 97.938 97 2 0 5353 5449 506167764 506167668 1.610000e-37 169.0
31 TraesCS4D01G101700 chr4A 90.588 85 4 4 6062 6142 338747849 338747765 9.880000e-20 110.0
32 TraesCS4D01G101700 chr4A 90.361 83 6 2 6058 6139 207361816 207361735 3.550000e-19 108.0
33 TraesCS4D01G101700 chr4A 98.305 59 0 1 5498 5555 506167840 506167782 1.650000e-17 102.0
34 TraesCS4D01G101700 chr6A 89.130 92 5 2 6056 6146 39440872 39440959 9.880000e-20 110.0
35 TraesCS4D01G101700 chr2D 90.588 85 4 1 6062 6142 24948655 24948571 9.880000e-20 110.0
36 TraesCS4D01G101700 chr3B 88.172 93 6 4 6058 6145 727790661 727790753 1.280000e-18 106.0
37 TraesCS4D01G101700 chr3B 89.157 83 6 2 6062 6142 547565932 547566013 5.940000e-17 100.0
38 TraesCS4D01G101700 chr1D 89.535 86 6 2 6062 6144 454462883 454462968 1.280000e-18 106.0


These results show the homologous regions that are presented in the multiple sequence alignment. HSPs from the BLAST search that are within 2000 bases of each other have been grouped together. Homologous regions that are purely upstream or downstream may be removed if they don't overlap both primers.

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS4D01G101700 chr4D 79699920 79709221 9301 False 17178.000000 17178 100.000000 1 9302 1 chr4D.!!$F1 9301
1 TraesCS4D01G101700 chr4D 79220492 79222687 2195 False 798.500000 1402 83.120000 5461 8814 2 chr4D.!!$F3 3353
2 TraesCS4D01G101700 chr4D 79211739 79215592 3853 False 782.333333 1967 82.990333 21 3380 3 chr4D.!!$F2 3359
3 TraesCS4D01G101700 chr4B 111036179 111045923 9744 False 2563.750000 6096 97.039167 1 9272 6 chr4B.!!$F3 9271
4 TraesCS4D01G101700 chr4B 110711801 110713856 2055 False 805.000000 1452 88.827000 5577 8785 2 chr4B.!!$F2 3208
5 TraesCS4D01G101700 chr4B 110702974 110706820 3846 False 785.000000 1973 83.050000 21 3380 3 chr4B.!!$F1 3359
6 TraesCS4D01G101700 chr4A 506163924 506172633 8709 True 1932.428571 4966 96.962000 1 9014 7 chr4A.!!$R3 9013
7 TraesCS4D01G101700 chr4A 506717407 506720825 3418 True 1079.000000 1962 82.556500 21 3091 2 chr4A.!!$R5 3070
8 TraesCS4D01G101700 chr4A 506709263 506711347 2084 True 784.000000 1373 81.744000 5461 8814 2 chr4A.!!$R4 3353

AutoCloner calculated primer pairs

These primer pairs were selected by Autocloner to minimize primer penalty (calculated by Primer3), whilst remaining within the specified product range where possible.

Download AutoCloner chosen primers as CSV: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
476 505 0.529378 CTGGATTTTGCTGGCTGGTC 59.471 55.000 0.00 0.0 0.00 4.02 F
781 1393 0.755686 TTTTGGGTGGTGTGGATTGC 59.244 50.000 0.00 0.0 0.00 3.56 F
936 1552 1.078143 AAAGGATGGCGAGGTGAGC 60.078 57.895 0.00 0.0 0.00 4.26 F
1485 2107 1.170919 AGCACCAGCAAGAGCAACAG 61.171 55.000 0.00 0.0 45.49 3.16 F
2372 3007 2.806244 TGCTCCGACTGCTAAAAAGAAC 59.194 45.455 0.00 0.0 0.00 3.01 F
3534 4360 2.163818 TGTTCGGTGGAGCTAGTTTG 57.836 50.000 0.00 0.0 0.00 2.93 F
4922 5947 0.037326 TCAAGCTAGCCAACTGGTCG 60.037 55.000 12.13 0.0 37.57 4.79 F
5259 6321 0.032540 GCTTGCCCTGTTTTGACCTG 59.967 55.000 0.00 0.0 0.00 4.00 F
6560 8106 2.100197 GACCCTTTAACCTGCCCAATC 58.900 52.381 0.00 0.0 0.00 2.67 F
7381 8951 0.535780 TCTTCAACCACAGCAGCAGG 60.536 55.000 0.00 0.0 0.00 4.85 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1440 2062 1.450848 CCGCACATCCATCTGCTGT 60.451 57.895 0.00 0.00 0.00 4.40 R
2519 3154 2.624029 CCTGGAGGTGCAAACCCATAAT 60.624 50.000 0.00 0.00 0.00 1.28 R
2775 3413 8.066000 GCTTTTGCATAATCCAAAATAATCTGC 58.934 33.333 0.00 0.00 46.58 4.26 R
3128 3950 0.461870 CAAGATCCATGACCGCGGAA 60.462 55.000 35.90 20.56 34.22 4.30 R
4216 5241 0.679505 TGAGCTGTGGTAGTGGTCAC 59.320 55.000 0.00 0.00 34.00 3.67 R
5238 6299 0.463620 GGTCAAAACAGGGCAAGCAA 59.536 50.000 0.00 0.00 0.00 3.91 R
6480 8026 1.333636 ACATGGAAGAGAGGCTCCGG 61.334 60.000 11.71 0.00 0.00 5.14 R
6782 8340 2.463620 CGCCAGCGCATCAAAGCTA 61.464 57.895 11.47 0.00 42.52 3.32 R
8100 9670 0.479815 TCCCCATCCTGCCATTCATC 59.520 55.000 0.00 0.00 0.00 2.92 R
9280 10888 0.258774 AGGTATGTGTTGGGGATGGC 59.741 55.000 0.00 0.00 0.00 4.40 R

All possible primers

Listed here are all possible primers based on the multiple sequence alignment and SNPs generated previously. A lower penalty score indicates a better primer. If the AutoCloner primers did not work during PCR or sequencing, these could be used as alternatives.

Download all possible primers: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
112 122 4.087892 TGCTTGCGCCTCCTCTCC 62.088 66.667 4.18 0.00 34.43 3.71
113 123 4.847444 GCTTGCGCCTCCTCTCCC 62.847 72.222 4.18 0.00 0.00 4.30
114 124 4.168291 CTTGCGCCTCCTCTCCCC 62.168 72.222 4.18 0.00 0.00 4.81
115 125 4.722535 TTGCGCCTCCTCTCCCCT 62.723 66.667 4.18 0.00 0.00 4.79
116 126 4.722535 TGCGCCTCCTCTCCCCTT 62.723 66.667 4.18 0.00 0.00 3.95
476 505 0.529378 CTGGATTTTGCTGGCTGGTC 59.471 55.000 0.00 0.00 0.00 4.02
746 1358 2.159393 TGCTTTGGATGCTCGTTTATGC 60.159 45.455 0.00 0.00 0.00 3.14
781 1393 0.755686 TTTTGGGTGGTGTGGATTGC 59.244 50.000 0.00 0.00 0.00 3.56
832 1444 4.940046 CACTCTAGATCCAATGCTTGTGTT 59.060 41.667 0.00 0.00 0.00 3.32
858 1474 3.733337 AGCTGTAGTCTCTGGTTGTTTG 58.267 45.455 0.00 0.00 0.00 2.93
877 1493 1.364901 CAGGGTTTGCTGCCTTGTG 59.635 57.895 0.00 0.00 0.00 3.33
936 1552 1.078143 AAAGGATGGCGAGGTGAGC 60.078 57.895 0.00 0.00 0.00 4.26
969 1587 3.119101 TCGATCTTGGAGTAGTTTCTGCC 60.119 47.826 0.00 0.00 0.00 4.85
1299 1918 3.905249 GGTGGGCTTCCGATGAAC 58.095 61.111 0.00 0.00 0.00 3.18
1485 2107 1.170919 AGCACCAGCAAGAGCAACAG 61.171 55.000 0.00 0.00 45.49 3.16
2192 2827 4.800471 GCAAAAGGCATGTGCTTATAACTC 59.200 41.667 4.84 0.00 43.97 3.01
2372 3007 2.806244 TGCTCCGACTGCTAAAAAGAAC 59.194 45.455 0.00 0.00 0.00 3.01
2925 3563 7.736447 ACTTTGTTCTTCTTCCTGTCATTAG 57.264 36.000 0.00 0.00 0.00 1.73
2972 3614 5.136828 TCTTGAATAAGTGGTGCCTTTTGA 58.863 37.500 0.00 0.00 35.38 2.69
3463 4289 9.739276 TTGTCCACTTCTTTTCTTCATGTATAT 57.261 29.630 0.00 0.00 0.00 0.86
3534 4360 2.163818 TGTTCGGTGGAGCTAGTTTG 57.836 50.000 0.00 0.00 0.00 2.93
3620 4446 7.158099 ACCTTAGTCCAAAACAAGATATTGC 57.842 36.000 0.00 0.00 0.00 3.56
3621 4447 6.948309 ACCTTAGTCCAAAACAAGATATTGCT 59.052 34.615 0.00 0.00 0.00 3.91
3622 4448 7.451566 ACCTTAGTCCAAAACAAGATATTGCTT 59.548 33.333 0.00 0.00 0.00 3.91
3642 4477 4.475944 CTTGTCAAGAAAAACGGGCATAG 58.524 43.478 6.76 0.00 0.00 2.23
3643 4478 3.482436 TGTCAAGAAAAACGGGCATAGT 58.518 40.909 0.00 0.00 0.00 2.12
3644 4479 3.886505 TGTCAAGAAAAACGGGCATAGTT 59.113 39.130 0.00 0.00 0.00 2.24
3645 4480 4.226761 GTCAAGAAAAACGGGCATAGTTG 58.773 43.478 0.00 0.00 31.43 3.16
3655 4490 2.556622 CGGGCATAGTTGACTTGGTTTT 59.443 45.455 0.00 0.00 0.00 2.43
3656 4491 3.005367 CGGGCATAGTTGACTTGGTTTTT 59.995 43.478 0.00 0.00 0.00 1.94
3658 4493 5.619086 CGGGCATAGTTGACTTGGTTTTTAG 60.619 44.000 0.00 0.00 0.00 1.85
3659 4494 5.161358 GGCATAGTTGACTTGGTTTTTAGC 58.839 41.667 0.00 0.00 0.00 3.09
3662 4497 7.362574 GGCATAGTTGACTTGGTTTTTAGCATA 60.363 37.037 0.00 0.00 0.00 3.14
3663 4498 8.190784 GCATAGTTGACTTGGTTTTTAGCATAT 58.809 33.333 0.00 0.00 0.00 1.78
3665 4500 7.759489 AGTTGACTTGGTTTTTAGCATATCA 57.241 32.000 0.00 0.00 0.00 2.15
3667 4502 6.509418 TGACTTGGTTTTTAGCATATCACC 57.491 37.500 0.00 0.00 0.00 4.02
3745 4770 8.353423 AGTTGACTTGGTTTTTAGCATATCAT 57.647 30.769 0.00 0.00 0.00 2.45
4045 5070 6.911308 AGGTGCTACAATAACCCTTATCATT 58.089 36.000 0.00 0.00 34.29 2.57
4216 5241 3.947196 GGGGTTACCTATGGTTTAAACCG 59.053 47.826 27.93 17.87 40.71 4.44
4410 5435 3.926616 ACTGAATAGTCTGTCGTTTGGG 58.073 45.455 0.00 0.00 30.69 4.12
4533 5558 3.571401 GCTCTTAGGGTAATGCATGCATT 59.429 43.478 39.40 39.40 46.85 3.56
4604 5629 3.060740 GTGACGTTCCGTTAAGTGACAAG 60.061 47.826 0.00 0.00 41.37 3.16
4682 5707 2.507407 TTCATAAGCACCACCCTTCC 57.493 50.000 0.00 0.00 0.00 3.46
4760 5785 0.834612 ACCAACCAACTCACCGAAGA 59.165 50.000 0.00 0.00 0.00 2.87
4761 5786 1.226746 CCAACCAACTCACCGAAGAC 58.773 55.000 0.00 0.00 0.00 3.01
4772 5797 2.002586 CACCGAAGACCTTATGCTGTG 58.997 52.381 0.00 0.00 0.00 3.66
4834 5859 9.041354 TGTGCATTTATTCCCTAAAAAGGTAAT 57.959 29.630 0.00 0.00 33.15 1.89
4882 5907 2.357034 GGCTGAACCTCGAACGCA 60.357 61.111 0.00 0.00 34.51 5.24
4922 5947 0.037326 TCAAGCTAGCCAACTGGTCG 60.037 55.000 12.13 0.00 37.57 4.79
5038 6063 9.927668 TTGAAAATGGGATTCTAGTTGAAAATC 57.072 29.630 0.00 0.00 38.29 2.17
5067 6092 5.007724 GGATTGTTGGAATGTAGAACGGATC 59.992 44.000 0.00 0.00 0.00 3.36
5073 6098 4.158949 TGGAATGTAGAACGGATCGAGAAA 59.841 41.667 0.00 0.00 0.00 2.52
5091 6116 4.091549 AGAAACATCCAGTTGCCATGAAT 58.908 39.130 0.00 0.00 41.19 2.57
5094 6119 4.508551 ACATCCAGTTGCCATGAATAGA 57.491 40.909 0.00 0.00 0.00 1.98
5095 6120 4.858850 ACATCCAGTTGCCATGAATAGAA 58.141 39.130 0.00 0.00 0.00 2.10
5213 6274 6.653320 TGTTCTAGAAGCATAAAATGTCCGTT 59.347 34.615 5.12 0.00 0.00 4.44
5238 6299 5.642063 AGCAAATATAACCTTATACGCGCAT 59.358 36.000 5.73 0.00 0.00 4.73
5259 6321 0.032540 GCTTGCCCTGTTTTGACCTG 59.967 55.000 0.00 0.00 0.00 4.00
5261 6323 2.242043 CTTGCCCTGTTTTGACCTGAT 58.758 47.619 0.00 0.00 0.00 2.90
5271 6333 4.081198 TGTTTTGACCTGATTTGCTTGGTT 60.081 37.500 0.00 0.00 32.30 3.67
5283 6345 3.177997 TGCTTGGTTTCTTTTGCTTCC 57.822 42.857 0.00 0.00 0.00 3.46
5284 6346 2.499289 TGCTTGGTTTCTTTTGCTTCCA 59.501 40.909 0.00 0.00 0.00 3.53
5357 6419 4.320935 GGTAGCACCTAAACCACATTGTTG 60.321 45.833 0.00 0.00 34.73 3.33
5362 6424 5.221165 GCACCTAAACCACATTGTTGTTACT 60.221 40.000 6.68 0.00 32.34 2.24
5365 6427 7.762159 CACCTAAACCACATTGTTGTTACTTTT 59.238 33.333 6.68 0.00 32.34 2.27
5385 6447 5.895636 TTTCTTGCTGACTGTTTCTTTGA 57.104 34.783 0.00 0.00 0.00 2.69
5690 6772 4.688021 CCTTCAGGTACACTCTAATCTGC 58.312 47.826 0.00 0.00 0.00 4.26
6087 7337 2.160417 CCTCCGTCTCAAAATGCAAGAC 59.840 50.000 5.56 5.56 36.82 3.01
6100 7350 4.669206 ATGCAAGACCATTTTTGACACA 57.331 36.364 0.00 0.00 0.00 3.72
6211 7474 8.547967 AAATCACTGTAACTATCGTTTCATGT 57.452 30.769 0.00 0.00 34.59 3.21
6216 7479 4.998033 TGTAACTATCGTTTCATGTTGCCA 59.002 37.500 0.00 0.00 34.59 4.92
6236 7499 7.269522 TGCCATTATTCCATCCATCACTATA 57.730 36.000 0.00 0.00 0.00 1.31
6365 7911 5.477291 TGTTTGTTTGGTGAGTTAAAGTCCA 59.523 36.000 0.00 0.00 0.00 4.02
6366 7912 5.828299 TTGTTTGGTGAGTTAAAGTCCAG 57.172 39.130 0.00 0.00 0.00 3.86
6367 7913 4.850680 TGTTTGGTGAGTTAAAGTCCAGT 58.149 39.130 0.00 0.00 0.00 4.00
6368 7914 5.258051 TGTTTGGTGAGTTAAAGTCCAGTT 58.742 37.500 0.00 0.00 0.00 3.16
6369 7915 5.712917 TGTTTGGTGAGTTAAAGTCCAGTTT 59.287 36.000 0.00 0.00 0.00 2.66
6370 7916 5.828299 TTGGTGAGTTAAAGTCCAGTTTG 57.172 39.130 0.00 0.00 0.00 2.93
6371 7917 4.204012 TGGTGAGTTAAAGTCCAGTTTGG 58.796 43.478 0.00 0.00 39.43 3.28
6372 7918 4.204799 GGTGAGTTAAAGTCCAGTTTGGT 58.795 43.478 0.00 0.00 39.03 3.67
6373 7919 4.643334 GGTGAGTTAAAGTCCAGTTTGGTT 59.357 41.667 0.00 0.00 39.03 3.67
6374 7920 5.824097 GGTGAGTTAAAGTCCAGTTTGGTTA 59.176 40.000 0.00 0.00 39.03 2.85
6375 7921 6.319405 GGTGAGTTAAAGTCCAGTTTGGTTAA 59.681 38.462 0.00 0.00 39.03 2.01
6480 8026 6.809630 AAGATAGCAAAACTTCTCAAGACC 57.190 37.500 0.00 0.00 0.00 3.85
6560 8106 2.100197 GACCCTTTAACCTGCCCAATC 58.900 52.381 0.00 0.00 0.00 2.67
6782 8340 1.227556 GCAGGCCCGATAACGACAT 60.228 57.895 0.00 0.00 42.66 3.06
6795 8353 0.652592 ACGACATAGCTTTGATGCGC 59.347 50.000 11.39 0.00 38.13 6.09
7019 8577 1.029681 AGTTTTCCAACCACTTCCGC 58.970 50.000 0.00 0.00 32.70 5.54
7380 8950 0.873054 CTCTTCAACCACAGCAGCAG 59.127 55.000 0.00 0.00 0.00 4.24
7381 8951 0.535780 TCTTCAACCACAGCAGCAGG 60.536 55.000 0.00 0.00 0.00 4.85
7382 8952 2.138656 CTTCAACCACAGCAGCAGGC 62.139 60.000 0.00 0.00 45.30 4.85
7779 9349 4.105217 TCCCCAGCAGTATCATCATCAAAT 59.895 41.667 0.00 0.00 0.00 2.32
7920 9490 3.349927 TGGAGCAAATGACATGAAGAGG 58.650 45.455 0.00 0.00 0.00 3.69
8100 9670 2.502510 GCAAACAGTGCGATGGCG 60.503 61.111 0.00 0.00 45.10 5.69
8384 9968 0.171903 ATGGAGCGTCAATTGCTTGC 59.828 50.000 0.00 4.47 44.18 4.01
8385 9969 0.890542 TGGAGCGTCAATTGCTTGCT 60.891 50.000 15.68 15.68 44.18 3.91
8386 9970 0.455633 GGAGCGTCAATTGCTTGCTG 60.456 55.000 19.18 0.37 44.18 4.41
8387 9971 0.239347 GAGCGTCAATTGCTTGCTGT 59.761 50.000 19.18 1.95 44.18 4.40
8388 9972 0.039798 AGCGTCAATTGCTTGCTGTG 60.040 50.000 15.18 0.00 40.48 3.66
8390 9974 1.678360 CGTCAATTGCTTGCTGTGAC 58.322 50.000 0.00 11.18 36.17 3.67
8528 10120 6.426937 CCTGTGTATTATGCAACTATGGTACC 59.573 42.308 4.43 4.43 0.00 3.34
8814 10418 6.898041 TCGTGGAAAAAGTATCAAGAATGTG 58.102 36.000 0.00 0.00 0.00 3.21
8859 10463 6.214412 ACTCTTCTATCCCAGATGTTTCTGTT 59.786 38.462 2.61 0.00 46.71 3.16
9048 10656 0.037734 ATCCTTCCCAAACGTCCACC 59.962 55.000 0.00 0.00 0.00 4.61
9063 10671 0.106519 CCACCCTGGGGCAAATCTAG 60.107 60.000 18.88 0.00 39.32 2.43
9064 10672 0.625849 CACCCTGGGGCAAATCTAGT 59.374 55.000 18.88 0.00 39.32 2.57
9065 10673 0.919710 ACCCTGGGGCAAATCTAGTC 59.080 55.000 18.88 0.00 39.32 2.59
9066 10674 0.183731 CCCTGGGGCAAATCTAGTCC 59.816 60.000 4.27 0.00 0.00 3.85
9067 10675 0.918983 CCTGGGGCAAATCTAGTCCA 59.081 55.000 0.00 0.00 30.51 4.02
9068 10676 1.284785 CCTGGGGCAAATCTAGTCCAA 59.715 52.381 0.00 0.00 30.51 3.53
9069 10677 2.291540 CCTGGGGCAAATCTAGTCCAAA 60.292 50.000 0.00 0.00 30.51 3.28
9070 10678 2.755103 CTGGGGCAAATCTAGTCCAAAC 59.245 50.000 0.00 0.00 30.51 2.93
9077 10685 4.222810 GCAAATCTAGTCCAAACCCCAAAT 59.777 41.667 0.00 0.00 0.00 2.32
9092 10700 0.893270 CAAATGTCCGGGCTGACCAA 60.893 55.000 7.97 0.00 40.22 3.67
9097 10705 0.893727 GTCCGGGCTGACCAACAATT 60.894 55.000 0.00 0.00 40.22 2.32
9099 10707 0.609131 CCGGGCTGACCAACAATTCT 60.609 55.000 0.00 0.00 40.22 2.40
9106 10714 4.265073 GCTGACCAACAATTCTCATACCT 58.735 43.478 0.00 0.00 0.00 3.08
9107 10715 4.095483 GCTGACCAACAATTCTCATACCTG 59.905 45.833 0.00 0.00 0.00 4.00
9108 10716 5.491070 CTGACCAACAATTCTCATACCTGA 58.509 41.667 0.00 0.00 0.00 3.86
9109 10717 6.065976 TGACCAACAATTCTCATACCTGAT 57.934 37.500 0.00 0.00 0.00 2.90
9110 10718 6.484288 TGACCAACAATTCTCATACCTGATT 58.516 36.000 0.00 0.00 0.00 2.57
9111 10719 6.599244 TGACCAACAATTCTCATACCTGATTC 59.401 38.462 0.00 0.00 0.00 2.52
9112 10720 6.484288 ACCAACAATTCTCATACCTGATTCA 58.516 36.000 0.00 0.00 0.00 2.57
9113 10721 6.947733 ACCAACAATTCTCATACCTGATTCAA 59.052 34.615 0.00 0.00 0.00 2.69
9114 10722 7.094205 ACCAACAATTCTCATACCTGATTCAAC 60.094 37.037 0.00 0.00 0.00 3.18
9115 10723 7.094248 CCAACAATTCTCATACCTGATTCAACA 60.094 37.037 0.00 0.00 0.00 3.33
9116 10724 8.298854 CAACAATTCTCATACCTGATTCAACAA 58.701 33.333 0.00 0.00 0.00 2.83
9117 10725 8.585471 ACAATTCTCATACCTGATTCAACAAT 57.415 30.769 0.00 0.00 0.00 2.71
9118 10726 9.028284 ACAATTCTCATACCTGATTCAACAATT 57.972 29.630 0.00 0.00 0.00 2.32
9119 10727 9.512435 CAATTCTCATACCTGATTCAACAATTC 57.488 33.333 0.00 0.00 0.00 2.17
9120 10728 9.471702 AATTCTCATACCTGATTCAACAATTCT 57.528 29.630 0.00 0.00 0.00 2.40
9121 10729 8.498054 TTCTCATACCTGATTCAACAATTCTC 57.502 34.615 0.00 0.00 0.00 2.87
9122 10730 7.623630 TCTCATACCTGATTCAACAATTCTCA 58.376 34.615 0.00 0.00 0.00 3.27
9123 10731 8.270030 TCTCATACCTGATTCAACAATTCTCAT 58.730 33.333 0.00 0.00 0.00 2.90
9124 10732 9.551734 CTCATACCTGATTCAACAATTCTCATA 57.448 33.333 0.00 0.00 0.00 2.15
9125 10733 9.330063 TCATACCTGATTCAACAATTCTCATAC 57.670 33.333 0.00 0.00 0.00 2.39
9126 10734 8.562892 CATACCTGATTCAACAATTCTCATACC 58.437 37.037 0.00 0.00 0.00 2.73
9127 10735 6.725364 ACCTGATTCAACAATTCTCATACCT 58.275 36.000 0.00 0.00 0.00 3.08
9128 10736 6.600822 ACCTGATTCAACAATTCTCATACCTG 59.399 38.462 0.00 0.00 0.00 4.00
9129 10737 6.825213 CCTGATTCAACAATTCTCATACCTGA 59.175 38.462 0.00 0.00 0.00 3.86
9139 10747 9.281371 ACAATTCTCATACCTGATTCATATGTG 57.719 33.333 1.90 5.55 0.00 3.21
9155 10763 2.852075 TGGGGCGGATATGGGGAC 60.852 66.667 0.00 0.00 0.00 4.46
9157 10765 3.239253 GGGCGGATATGGGGACGT 61.239 66.667 0.00 0.00 0.00 4.34
9158 10766 2.342648 GGCGGATATGGGGACGTC 59.657 66.667 7.13 7.13 0.00 4.34
9195 10803 1.153765 GCCCGCTCCAATTTGCTTC 60.154 57.895 0.00 0.00 0.00 3.86
9200 10808 2.165030 CCGCTCCAATTTGCTTCAAGAT 59.835 45.455 0.00 0.00 0.00 2.40
9201 10809 3.176708 CGCTCCAATTTGCTTCAAGATG 58.823 45.455 0.00 0.00 0.00 2.90
9202 10810 2.928116 GCTCCAATTTGCTTCAAGATGC 59.072 45.455 0.00 1.38 0.00 3.91
9236 10844 5.245531 CCTAACCTGCATGTTTCTCTTGTA 58.754 41.667 12.74 0.00 0.00 2.41
9239 10847 6.655078 AACCTGCATGTTTCTCTTGTATTT 57.345 33.333 1.04 0.00 0.00 1.40
9244 10852 7.540055 CCTGCATGTTTCTCTTGTATTTTCTTC 59.460 37.037 0.00 0.00 0.00 2.87
9258 10866 1.865865 TTCTTCCTCGTCTGCACAAC 58.134 50.000 0.00 0.00 0.00 3.32
9265 10873 2.870372 GTCTGCACAACCGCCATC 59.130 61.111 0.00 0.00 0.00 3.51
9272 10880 0.660005 CACAACCGCCATCGTTGTTG 60.660 55.000 3.69 0.00 40.88 3.33
9273 10881 1.081509 CAACCGCCATCGTTGTTGG 60.082 57.895 0.00 0.00 35.60 3.77
9274 10882 1.527380 AACCGCCATCGTTGTTGGT 60.527 52.632 2.06 2.06 36.57 3.67
9275 10883 1.512156 AACCGCCATCGTTGTTGGTC 61.512 55.000 7.18 0.00 36.57 4.02
9276 10884 2.686816 CCGCCATCGTTGTTGGTCC 61.687 63.158 0.00 0.00 36.57 4.46
9277 10885 2.867472 GCCATCGTTGTTGGTCCG 59.133 61.111 0.00 0.00 36.57 4.79
9278 10886 2.686816 GCCATCGTTGTTGGTCCGG 61.687 63.158 0.00 0.00 36.57 5.14
9279 10887 2.686816 CCATCGTTGTTGGTCCGGC 61.687 63.158 0.00 0.00 0.00 6.13
9280 10888 2.740826 ATCGTTGTTGGTCCGGCG 60.741 61.111 0.00 0.00 0.00 6.46
9284 10892 4.652131 TTGTTGGTCCGGCGCCAT 62.652 61.111 28.98 0.00 35.71 4.40
9295 10903 2.755469 GCGCCATCCCCAACACAT 60.755 61.111 0.00 0.00 0.00 3.21
9296 10904 1.453015 GCGCCATCCCCAACACATA 60.453 57.895 0.00 0.00 0.00 2.29
9297 10905 1.724582 GCGCCATCCCCAACACATAC 61.725 60.000 0.00 0.00 0.00 2.39
9298 10906 1.101049 CGCCATCCCCAACACATACC 61.101 60.000 0.00 0.00 0.00 2.73
9299 10907 0.258774 GCCATCCCCAACACATACCT 59.741 55.000 0.00 0.00 0.00 3.08
9300 10908 1.341976 GCCATCCCCAACACATACCTT 60.342 52.381 0.00 0.00 0.00 3.50
9301 10909 2.654863 CCATCCCCAACACATACCTTC 58.345 52.381 0.00 0.00 0.00 3.46
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
32 33 5.470098 CCCATTCGATTTGATTAAGATCCGT 59.530 40.000 0.00 0.00 0.00 4.69
100 101 3.393149 GAAAGGGGAGAGGAGGCGC 62.393 68.421 0.00 0.00 0.00 6.53
112 122 2.300437 ACGAAACAGGAGAGAGAAAGGG 59.700 50.000 0.00 0.00 0.00 3.95
113 123 3.257127 AGACGAAACAGGAGAGAGAAAGG 59.743 47.826 0.00 0.00 0.00 3.11
114 124 4.481463 GAGACGAAACAGGAGAGAGAAAG 58.519 47.826 0.00 0.00 0.00 2.62
115 125 3.058155 CGAGACGAAACAGGAGAGAGAAA 60.058 47.826 0.00 0.00 0.00 2.52
116 126 2.484651 CGAGACGAAACAGGAGAGAGAA 59.515 50.000 0.00 0.00 0.00 2.87
691 1302 0.036306 AAATCCGCCACGAGGAAAGT 59.964 50.000 1.86 0.00 41.69 2.66
697 1309 0.807667 CTCCTCAAATCCGCCACGAG 60.808 60.000 0.00 0.00 0.00 4.18
746 1358 6.158598 CACCCAAAATCAACCATAGAAACAG 58.841 40.000 0.00 0.00 0.00 3.16
781 1393 4.318332 TCCAGCACAAATCTACTGAACAG 58.682 43.478 0.00 0.00 31.67 3.16
832 1444 4.833380 ACAACCAGAGACTACAGCTTTAGA 59.167 41.667 13.82 0.00 0.00 2.10
877 1493 1.446618 CCGCCAAAATTGAGCAGGC 60.447 57.895 0.00 0.00 41.86 4.85
936 1552 1.154016 AAGATCGAGTGCGTCACCG 60.154 57.895 6.39 9.37 38.98 4.94
969 1587 1.025812 ATGGGAGAGCTACGAACTCG 58.974 55.000 0.00 0.00 46.33 4.18
1299 1918 1.601171 CCCTCTCTGCTGAAGGGTG 59.399 63.158 21.98 2.70 35.18 4.61
1440 2062 1.450848 CCGCACATCCATCTGCTGT 60.451 57.895 0.00 0.00 0.00 4.40
1485 2107 2.331194 GGCAGTTGATGTTGTTGATGC 58.669 47.619 0.00 0.00 0.00 3.91
2372 3007 5.875910 AGAACAGAAGAGAAAGAGATGCATG 59.124 40.000 2.46 0.00 0.00 4.06
2519 3154 2.624029 CCTGGAGGTGCAAACCCATAAT 60.624 50.000 0.00 0.00 0.00 1.28
2775 3413 8.066000 GCTTTTGCATAATCCAAAATAATCTGC 58.934 33.333 0.00 0.00 46.58 4.26
2972 3614 8.752005 ACAGGATTGTGCAATATATGTTAGTT 57.248 30.769 0.00 0.00 35.83 2.24
3113 3935 8.604640 TGACCGCGGAATAAATAACAATATAA 57.395 30.769 35.90 0.00 0.00 0.98
3115 3937 7.361713 CCATGACCGCGGAATAAATAACAATAT 60.362 37.037 35.90 1.85 0.00 1.28
3117 3939 5.278266 CCATGACCGCGGAATAAATAACAAT 60.278 40.000 35.90 3.27 0.00 2.71
3119 3941 3.562141 CCATGACCGCGGAATAAATAACA 59.438 43.478 35.90 16.01 0.00 2.41
3120 3942 3.810941 TCCATGACCGCGGAATAAATAAC 59.189 43.478 35.90 11.03 0.00 1.89
3124 3946 2.104111 AGATCCATGACCGCGGAATAAA 59.896 45.455 35.90 15.49 34.22 1.40
3125 3947 1.691976 AGATCCATGACCGCGGAATAA 59.308 47.619 35.90 14.40 34.22 1.40
3126 3948 1.338107 AGATCCATGACCGCGGAATA 58.662 50.000 35.90 17.82 34.22 1.75
3127 3949 0.469917 AAGATCCATGACCGCGGAAT 59.530 50.000 35.90 22.00 34.22 3.01
3128 3950 0.461870 CAAGATCCATGACCGCGGAA 60.462 55.000 35.90 20.56 34.22 4.30
3129 3951 1.143838 CAAGATCCATGACCGCGGA 59.856 57.895 35.90 11.57 35.27 5.54
3130 3952 0.744414 AACAAGATCCATGACCGCGG 60.744 55.000 26.86 26.86 0.00 6.46
3131 3953 1.934589 TAACAAGATCCATGACCGCG 58.065 50.000 0.00 0.00 0.00 6.46
3132 3954 4.900635 AAATAACAAGATCCATGACCGC 57.099 40.909 0.00 0.00 0.00 5.68
3133 3955 7.969536 AGATAAATAACAAGATCCATGACCG 57.030 36.000 0.00 0.00 0.00 4.79
3198 4022 5.163713 GCCAAGCTGACTAACCTGAATTAAG 60.164 44.000 0.00 0.00 0.00 1.85
3492 4318 0.992695 GGCTCCTTTACAGGGAAGGT 59.007 55.000 0.00 0.00 43.35 3.50
3534 4360 4.222114 GCATCTAAAACAACTCACTGTGC 58.778 43.478 2.12 0.00 0.00 4.57
3617 4443 2.737039 GCCCGTTTTTCTTGACAAGCAA 60.737 45.455 10.50 3.03 34.73 3.91
3620 4446 2.861462 TGCCCGTTTTTCTTGACAAG 57.139 45.000 9.03 9.03 0.00 3.16
3621 4447 3.886505 ACTATGCCCGTTTTTCTTGACAA 59.113 39.130 0.00 0.00 0.00 3.18
3622 4448 3.482436 ACTATGCCCGTTTTTCTTGACA 58.518 40.909 0.00 0.00 0.00 3.58
3625 4451 4.023193 AGTCAACTATGCCCGTTTTTCTTG 60.023 41.667 0.00 0.00 0.00 3.02
3626 4452 4.142038 AGTCAACTATGCCCGTTTTTCTT 58.858 39.130 0.00 0.00 0.00 2.52
3627 4453 3.751518 AGTCAACTATGCCCGTTTTTCT 58.248 40.909 0.00 0.00 0.00 2.52
3629 4455 3.005367 CCAAGTCAACTATGCCCGTTTTT 59.995 43.478 0.00 0.00 0.00 1.94
3632 4467 1.073284 ACCAAGTCAACTATGCCCGTT 59.927 47.619 0.00 0.00 0.00 4.44
3642 4477 6.806739 GGTGATATGCTAAAAACCAAGTCAAC 59.193 38.462 0.00 0.00 0.00 3.18
3643 4478 6.491745 TGGTGATATGCTAAAAACCAAGTCAA 59.508 34.615 0.00 0.00 34.85 3.18
3644 4479 6.007076 TGGTGATATGCTAAAAACCAAGTCA 58.993 36.000 0.00 0.00 34.85 3.41
3645 4480 6.509418 TGGTGATATGCTAAAAACCAAGTC 57.491 37.500 0.00 0.00 34.85 3.01
3707 4732 4.278170 CCAAGTCAACTATGGCAGTCAAAA 59.722 41.667 0.00 0.00 36.04 2.44
3745 4770 4.671831 TGGTTTGGCTTGATCATAAAGGA 58.328 39.130 0.00 0.00 0.00 3.36
3759 4784 3.320826 ACAGTAAATCCAGTTGGTTTGGC 59.679 43.478 0.00 0.00 35.62 4.52
3895 4920 2.594592 GCTCACCGGGCACACTTT 60.595 61.111 6.32 0.00 0.00 2.66
4045 5070 1.073025 AGATGAAGCCCGTGTGCAA 59.927 52.632 0.00 0.00 0.00 4.08
4216 5241 0.679505 TGAGCTGTGGTAGTGGTCAC 59.320 55.000 0.00 0.00 34.00 3.67
4410 5435 3.660111 GCCGCGGGTATTCATGGC 61.660 66.667 29.38 3.75 35.04 4.40
4424 5449 1.021390 ACCTTCGAAGCTCAATGCCG 61.021 55.000 19.99 5.26 44.23 5.69
4525 5550 5.050567 GCCTAAGCTTGAATAAAATGCATGC 60.051 40.000 11.82 11.82 35.50 4.06
4604 5629 1.541588 GGAATGGTGCCTGAACTGAAC 59.458 52.381 0.00 0.00 0.00 3.18
4717 5742 4.505191 GCATGATGTTGCATTTGATGTACC 59.495 41.667 0.00 0.00 42.31 3.34
4718 5743 5.630896 GCATGATGTTGCATTTGATGTAC 57.369 39.130 0.00 0.00 42.31 2.90
4760 5785 2.386864 TGCCCTCACAGCATAAGGT 58.613 52.632 0.00 0.00 34.69 3.50
4842 5867 1.535462 CGCTGGTTGATCCGAGTTTTT 59.465 47.619 0.00 0.00 39.52 1.94
4882 5907 3.637273 GGCTGAACCCACCGACCT 61.637 66.667 0.00 0.00 0.00 3.85
5038 6063 4.503910 TCTACATTCCAACAATCCTCGTG 58.496 43.478 0.00 0.00 0.00 4.35
5067 6092 1.522668 TGGCAACTGGATGTTTCTCG 58.477 50.000 0.00 0.00 36.63 4.04
5073 6098 4.508551 TCTATTCATGGCAACTGGATGT 57.491 40.909 0.00 0.00 37.61 3.06
5095 6120 9.362151 TGTCCACTTACCTAAAATGAGATTTTT 57.638 29.630 0.00 0.00 42.13 1.94
5213 6274 6.157904 TGCGCGTATAAGGTTATATTTGCTA 58.842 36.000 8.43 0.00 0.00 3.49
5238 6299 0.463620 GGTCAAAACAGGGCAAGCAA 59.536 50.000 0.00 0.00 0.00 3.91
5251 6313 4.405358 AGAAACCAAGCAAATCAGGTCAAA 59.595 37.500 0.00 0.00 32.05 2.69
5259 6321 5.277490 GGAAGCAAAAGAAACCAAGCAAATC 60.277 40.000 0.00 0.00 0.00 2.17
5261 6323 3.938334 GGAAGCAAAAGAAACCAAGCAAA 59.062 39.130 0.00 0.00 0.00 3.68
5271 6333 8.855110 TGAGTTATAACAATGGAAGCAAAAGAA 58.145 29.630 17.65 0.00 0.00 2.52
5357 6419 6.786207 AGAAACAGTCAGCAAGAAAAGTAAC 58.214 36.000 0.00 0.00 0.00 2.50
5362 6424 6.071952 ACTCAAAGAAACAGTCAGCAAGAAAA 60.072 34.615 0.00 0.00 0.00 2.29
5365 6427 4.517285 ACTCAAAGAAACAGTCAGCAAGA 58.483 39.130 0.00 0.00 0.00 3.02
5385 6447 7.016858 TGGAGTTGGTGAAAGGTAATAGTTACT 59.983 37.037 0.00 0.00 36.39 2.24
5470 6541 4.702131 ACTCAAAGAAACAGTCAGCAAGTT 59.298 37.500 0.00 0.00 0.00 2.66
5471 6542 4.265073 ACTCAAAGAAACAGTCAGCAAGT 58.735 39.130 0.00 0.00 0.00 3.16
5690 6772 6.721571 ATAACACGTGAATGGAAACTACAG 57.278 37.500 25.01 0.00 0.00 2.74
5761 7009 8.459521 TCAACGTTTTGCATGAAAATATTAGG 57.540 30.769 0.00 0.00 35.96 2.69
5765 7014 9.289303 GAGTATCAACGTTTTGCATGAAAATAT 57.711 29.630 0.00 0.00 33.41 1.28
6121 7384 1.961133 ACTCCCTCCGTCCCAAAATA 58.039 50.000 0.00 0.00 0.00 1.40
6150 7413 5.692204 CGAATGCTCACCTACCTTATAACTG 59.308 44.000 0.00 0.00 0.00 3.16
6211 7474 4.806892 AGTGATGGATGGAATAATGGCAA 58.193 39.130 0.00 0.00 0.00 4.52
6236 7499 4.160252 CAGGCATACCAATGTAGCCTTTTT 59.840 41.667 0.81 0.00 43.25 1.94
6286 7549 6.033831 GTCAAGGCAAAATAATCAACATCACG 59.966 38.462 0.00 0.00 0.00 4.35
6365 7911 7.176589 TGATCAACCAAACTTTAACCAAACT 57.823 32.000 0.00 0.00 0.00 2.66
6366 7912 7.011016 CCTTGATCAACCAAACTTTAACCAAAC 59.989 37.037 3.38 0.00 0.00 2.93
6367 7913 7.044798 CCTTGATCAACCAAACTTTAACCAAA 58.955 34.615 3.38 0.00 0.00 3.28
6368 7914 6.381420 TCCTTGATCAACCAAACTTTAACCAA 59.619 34.615 3.38 0.00 0.00 3.67
6369 7915 5.894393 TCCTTGATCAACCAAACTTTAACCA 59.106 36.000 3.38 0.00 0.00 3.67
6370 7916 6.040504 ACTCCTTGATCAACCAAACTTTAACC 59.959 38.462 3.38 0.00 0.00 2.85
6371 7917 7.013369 AGACTCCTTGATCAACCAAACTTTAAC 59.987 37.037 3.38 0.00 0.00 2.01
6372 7918 7.060421 AGACTCCTTGATCAACCAAACTTTAA 58.940 34.615 3.38 0.00 0.00 1.52
6373 7919 6.601332 AGACTCCTTGATCAACCAAACTTTA 58.399 36.000 3.38 0.00 0.00 1.85
6374 7920 5.449553 AGACTCCTTGATCAACCAAACTTT 58.550 37.500 3.38 0.00 0.00 2.66
6375 7921 5.053978 AGACTCCTTGATCAACCAAACTT 57.946 39.130 3.38 0.00 0.00 2.66
6480 8026 1.333636 ACATGGAAGAGAGGCTCCGG 61.334 60.000 11.71 0.00 0.00 5.14
6560 8106 6.460123 GCCATTAGAGTTGGTATTGTGGATTG 60.460 42.308 0.00 0.00 36.57 2.67
6782 8340 2.463620 CGCCAGCGCATCAAAGCTA 61.464 57.895 11.47 0.00 42.52 3.32
6795 8353 4.034258 CAAGCTGTGTGCCGCCAG 62.034 66.667 0.00 0.00 44.23 4.85
7019 8577 4.697352 CAGGTGATTACAGTTTCCTTCCTG 59.303 45.833 0.00 0.00 33.99 3.86
7077 8637 8.098912 GGAGTATTTAGAAGTTGTTTCCTACCA 58.901 37.037 0.00 0.00 36.40 3.25
7217 8787 3.015327 AGAAATCACAGGCTGCTGAATC 58.985 45.455 15.89 17.29 0.00 2.52
7381 8951 2.320339 GATTGCTGCTCTTCAGGCGC 62.320 60.000 0.00 0.00 43.06 6.53
7382 8952 0.743701 AGATTGCTGCTCTTCAGGCG 60.744 55.000 0.00 0.00 43.06 5.52
7659 9229 1.464997 GGAGACGGATTTGACTGCAAC 59.535 52.381 0.00 0.00 32.79 4.17
7779 9349 1.533513 TGGCTGCATTGGAGGCAAA 60.534 52.632 28.01 9.54 42.57 3.68
8093 9663 1.572941 CTGCCATTCATCGCCATCG 59.427 57.895 0.00 0.00 0.00 3.84
8100 9670 0.479815 TCCCCATCCTGCCATTCATC 59.520 55.000 0.00 0.00 0.00 2.92
8384 9968 1.688735 TGGACACAAGAGAGGTCACAG 59.311 52.381 0.00 0.00 33.26 3.66
8385 9969 1.788229 TGGACACAAGAGAGGTCACA 58.212 50.000 0.00 0.00 33.26 3.58
8386 9970 2.910688 TTGGACACAAGAGAGGTCAC 57.089 50.000 0.00 0.00 33.26 3.67
8814 10418 1.154197 GCACCTTTTACCCGACAGAC 58.846 55.000 0.00 0.00 0.00 3.51
8992 10600 1.265236 ATGCCCCGCAATTCAAGAAA 58.735 45.000 0.00 0.00 43.62 2.52
9048 10656 0.918983 TGGACTAGATTTGCCCCAGG 59.081 55.000 0.00 0.00 0.00 4.45
9063 10671 0.601057 CGGACATTTGGGGTTTGGAC 59.399 55.000 0.00 0.00 0.00 4.02
9064 10672 0.540830 CCGGACATTTGGGGTTTGGA 60.541 55.000 0.00 0.00 0.00 3.53
9065 10673 1.540435 CCCGGACATTTGGGGTTTGG 61.540 60.000 0.73 0.00 42.05 3.28
9066 10674 1.971418 CCCGGACATTTGGGGTTTG 59.029 57.895 0.73 0.00 42.05 2.93
9067 10675 1.911269 GCCCGGACATTTGGGGTTT 60.911 57.895 0.73 0.00 46.12 3.27
9068 10676 2.283604 GCCCGGACATTTGGGGTT 60.284 61.111 0.73 0.00 46.12 4.11
9070 10678 2.755469 CAGCCCGGACATTTGGGG 60.755 66.667 0.73 0.00 46.12 4.96
9077 10685 2.063015 ATTGTTGGTCAGCCCGGACA 62.063 55.000 0.73 0.00 39.59 4.02
9092 10700 8.585471 ATTGTTGAATCAGGTATGAGAATTGT 57.415 30.769 0.00 0.00 39.29 2.71
9097 10705 7.623630 TGAGAATTGTTGAATCAGGTATGAGA 58.376 34.615 0.00 0.00 39.29 3.27
9099 10707 9.330063 GTATGAGAATTGTTGAATCAGGTATGA 57.670 33.333 0.00 0.00 40.50 2.15
9106 10714 8.812513 AATCAGGTATGAGAATTGTTGAATCA 57.187 30.769 0.00 0.00 39.29 2.57
9107 10715 8.896744 TGAATCAGGTATGAGAATTGTTGAATC 58.103 33.333 0.00 0.00 39.29 2.52
9108 10716 8.812513 TGAATCAGGTATGAGAATTGTTGAAT 57.187 30.769 0.00 0.00 39.29 2.57
9109 10717 8.812513 ATGAATCAGGTATGAGAATTGTTGAA 57.187 30.769 0.00 0.00 39.29 2.69
9112 10720 9.857656 ACATATGAATCAGGTATGAGAATTGTT 57.142 29.630 10.38 0.00 39.29 2.83
9113 10721 9.281371 CACATATGAATCAGGTATGAGAATTGT 57.719 33.333 10.38 0.00 39.29 2.71
9114 10722 8.727910 CCACATATGAATCAGGTATGAGAATTG 58.272 37.037 10.38 0.00 39.29 2.32
9115 10723 7.886970 CCCACATATGAATCAGGTATGAGAATT 59.113 37.037 10.38 0.00 39.29 2.17
9116 10724 7.400439 CCCACATATGAATCAGGTATGAGAAT 58.600 38.462 10.38 0.00 39.29 2.40
9117 10725 6.239973 CCCCACATATGAATCAGGTATGAGAA 60.240 42.308 10.38 0.00 39.29 2.87
9118 10726 5.249163 CCCCACATATGAATCAGGTATGAGA 59.751 44.000 10.38 0.00 39.29 3.27
9119 10727 5.494724 CCCCACATATGAATCAGGTATGAG 58.505 45.833 10.38 3.50 39.29 2.90
9120 10728 4.263462 GCCCCACATATGAATCAGGTATGA 60.263 45.833 10.38 0.00 40.50 2.15
9121 10729 4.012374 GCCCCACATATGAATCAGGTATG 58.988 47.826 10.38 3.12 33.23 2.39
9122 10730 3.307691 CGCCCCACATATGAATCAGGTAT 60.308 47.826 10.38 0.00 0.00 2.73
9123 10731 2.038426 CGCCCCACATATGAATCAGGTA 59.962 50.000 10.38 0.00 0.00 3.08
9124 10732 1.202806 CGCCCCACATATGAATCAGGT 60.203 52.381 10.38 0.00 0.00 4.00
9125 10733 1.527034 CGCCCCACATATGAATCAGG 58.473 55.000 10.38 3.90 0.00 3.86
9126 10734 1.072173 TCCGCCCCACATATGAATCAG 59.928 52.381 10.38 0.00 0.00 2.90
9127 10735 1.135960 TCCGCCCCACATATGAATCA 58.864 50.000 10.38 0.00 0.00 2.57
9128 10736 2.496899 ATCCGCCCCACATATGAATC 57.503 50.000 10.38 0.00 0.00 2.52
9129 10737 3.371917 CCATATCCGCCCCACATATGAAT 60.372 47.826 10.38 0.00 33.86 2.57
9136 10744 3.174987 CCCCATATCCGCCCCACA 61.175 66.667 0.00 0.00 0.00 4.17
9139 10747 4.016706 CGTCCCCATATCCGCCCC 62.017 72.222 0.00 0.00 0.00 5.80
9181 10789 2.928116 GCATCTTGAAGCAAATTGGAGC 59.072 45.455 0.00 0.00 0.00 4.70
9195 10803 1.755783 GCAAGGAGGGGGCATCTTG 60.756 63.158 0.00 0.00 39.46 3.02
9200 10808 2.204228 TTAGGCAAGGAGGGGGCA 60.204 61.111 0.00 0.00 0.00 5.36
9201 10809 2.275748 GTTAGGCAAGGAGGGGGC 59.724 66.667 0.00 0.00 0.00 5.80
9202 10810 1.619669 AGGTTAGGCAAGGAGGGGG 60.620 63.158 0.00 0.00 0.00 5.40
9236 10844 3.126001 TGTGCAGACGAGGAAGAAAAT 57.874 42.857 0.00 0.00 0.00 1.82
9239 10847 1.540363 GGTTGTGCAGACGAGGAAGAA 60.540 52.381 0.00 0.00 0.00 2.52
9244 10852 3.414700 GCGGTTGTGCAGACGAGG 61.415 66.667 0.00 0.00 34.15 4.63
9258 10866 2.686816 GGACCAACAACGATGGCGG 61.687 63.158 0.00 0.00 41.89 6.13
9277 10885 2.902423 TATGTGTTGGGGATGGCGCC 62.902 60.000 22.73 22.73 46.73 6.53
9278 10886 1.453015 TATGTGTTGGGGATGGCGC 60.453 57.895 0.00 0.00 0.00 6.53
9279 10887 1.101049 GGTATGTGTTGGGGATGGCG 61.101 60.000 0.00 0.00 0.00 5.69
9280 10888 0.258774 AGGTATGTGTTGGGGATGGC 59.741 55.000 0.00 0.00 0.00 4.40
9281 10889 2.654863 GAAGGTATGTGTTGGGGATGG 58.345 52.381 0.00 0.00 0.00 3.51


Based at the University of Bristol with support from BBSRC. BBSRC icon Bristol icon

AutoCloner maintained by Alex Coulton.